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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 0.9

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

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        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/ewels/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2018-04-06, 10:04 based on data in: /mnt/picea/projects/aspseq/jfelten/ERF2018


        General Statistics

        Showing 200/200 rows and 12/13 columns.
        Sample Name% AssignedM AssignedFrag Length% AlignedM Aligned% AlignedM Aligned% Dropped% Dups% GCLengthM Seqs
        1_110707_BB0B0HABXX_wt-s1_ind_2_1
        58.3%
        46%
        101
        15.7
        1_110707_BB0B0HABXX_wt-s1_ind_2_2
        56.9%
        46%
        101
        15.7
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_1
        0.4%
        46.2%
        44%
        101
        11.7
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_2
        45.1%
        44%
        101
        11.7
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_trimmomatic
        88.2%
        9.6
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_trimmomatic_1
        180.3
        42.6%
        4.6
        45.3%
        44%
        100
        10.8
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_trimmomatic_2
        44.5%
        44%
        100
        10.8
        1_110707_BB0B0HABXX_wt-s1_ind_2_sortmerna_trimmomatic_STAR
        43.4%
        4.7
        1_110707_BB0B0HABXX_wt-s2_ind_4_1
        56.1%
        45%
        101
        17.9
        1_110707_BB0B0HABXX_wt-s2_ind_4_2
        54.7%
        45%
        101
        17.9
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_1
        0.4%
        48.5%
        43%
        101
        14.9
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_2
        47.3%
        44%
        101
        14.9
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_trimmomatic
        88.2%
        12.1
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_trimmomatic_1
        180.9
        42.4%
        5.8
        47.7%
        43%
        100
        13.8
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_trimmomatic_2
        46.7%
        43%
        100
        13.8
        1_110707_BB0B0HABXX_wt-s2_ind_4_sortmerna_trimmomatic_STAR
        43.3%
        6.0
        3_110707_BB0B0HABXX_230-13-ind_11_1
        49.8%
        43%
        101
        18.1
        3_110707_BB0B0HABXX_230-13-ind_11_2
        48.6%
        43%
        101
        18.1
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_1
        0.2%
        49.3%
        43%
        101
        17.8
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_2
        48.1%
        43%
        101
        17.8
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_trimmomatic
        88.9%
        15.3
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_trimmomatic_1
        199.2
        42.5%
        7.3
        49.0%
        43%
        100
        17.2
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_trimmomatic_2
        47.9%
        43%
        100
        17.2
        3_110707_BB0B0HABXX_230-13-ind_11_sortmerna_trimmomatic_STAR
        43.6%
        7.5
        3_110707_BB0B0HABXX_230-9_ind_10_1
        65.3%
        42%
        101
        19.8
        3_110707_BB0B0HABXX_230-9_ind_10_2
        64.0%
        42%
        101
        19.8
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_1
        0.5%
        64.9%
        42%
        101
        19.4
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_2
        63.7%
        42%
        101
        19.4
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_trimmomatic
        83.9%
        15.0
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_trimmomatic_1
        164.6
        42.7%
        7.6
        64.1%
        42%
        100
        17.8
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_trimmomatic_2
        63.1%
        41%
        100
        17.8
        3_110707_BB0B0HABXX_230-9_ind_10_sortmerna_trimmomatic_STAR
        42.4%
        7.3
        3_110707_BB0B0HABXX_250-13_ind_3_1
        56.1%
        45%
        101
        15.7
        3_110707_BB0B0HABXX_250-13_ind_3_2
        54.9%
        45%
        101
        15.7
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_1
        0.2%
        48.0%
        43%
        101
        12.8
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_2
        46.8%
        43%
        101
        12.8
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_trimmomatic
        81.5%
        10.0
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_trimmomatic_1
        180.4
        38.8%
        4.8
        47.7%
        43%
        100
        12.3
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_trimmomatic_2
        46.6%
        43%
        100
        12.3
        3_110707_BB0B0HABXX_250-13_ind_3_sortmerna_trimmomatic_STAR
        43.3%
        4.9
        3_110707_BB0B0HABXX_250-4_ind_1_1
        54.1%
        44%
        101
        21.1
        3_110707_BB0B0HABXX_250-4_ind_1_2
        52.8%
        44%
        101
        21.1
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_1
        0.4%
        53.5%
        43%
        101
        20.7
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_2
        52.3%
        43%
        101
        20.7
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_trimmomatic
        88.0%
        16.8
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_trimmomatic_1
        178.1
        42.6%
        8.2
        52.5%
        43%
        100
        19.1
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_trimmomatic_2
        51.4%
        43%
        100
        19.1
        3_110707_BB0B0HABXX_250-4_ind_1_sortmerna_trimmomatic_STAR
        43.3%
        8.3
        3_110707_BB0B0HABXX_250-5_ind_8_1
        70.0%
        49%
        101
        18.5
        3_110707_BB0B0HABXX_250-5_ind_8_2
        68.7%
        49%
        101
        18.5
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_1
        0.5%
        41.1%
        44%
        101
        8.6
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_2
        40.3%
        44%
        101
        8.6
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_trimmomatic
        88.3%
        6.9
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_trimmomatic_1
        172.7
        42.4%
        3.3
        40.2%
        44%
        100
        7.9
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_trimmomatic_2
        39.5%
        44%
        100
        7.9
        3_110707_BB0B0HABXX_250-5_ind_8_sortmerna_trimmomatic_STAR
        43.5%
        3.4
        4_110707_BB0B0HABXX_250-8_ind_9_1
        45.0%
        45%
        101
        6.7
        4_110707_BB0B0HABXX_250-8_ind_9_2
        44.4%
        45%
        101
        6.7
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_1
        1.0%
        37.1%
        44%
        101
        5.7
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_2
        36.6%
        44%
        101
        5.7
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_trimmomatic
        88.2%
        4.7
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_trimmomatic_1
        175.7
        42.3%
        2.2
        36.0%
        43%
        100
        5.3
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_trimmomatic_2
        35.5%
        43%
        100
        5.3
        4_110707_BB0B0HABXX_250-8_ind_9_sortmerna_trimmomatic_STAR
        43.4%
        2.3
        5_111017_BB0A46ABXX_230-13_ind_1_1
        57.7%
        44%
        101
        28.3
        5_111017_BB0A46ABXX_230-13_ind_1_2
        55.3%
        44%
        101
        28.3
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_1
        0.3%
        57.2%
        44%
        101
        27.8
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_2
        54.8%
        44%
        101
        27.8
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_trimmomatic
        85.8%
        22.1
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_trimmomatic_1
        175.9
        42.7%
        11.0
        56.2%
        43%
        100
        25.7
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_trimmomatic_2
        53.9%
        44%
        100
        25.7
        5_111017_BB0A46ABXX_230-13_ind_1_sortmerna_trimmomatic_STAR
        43.2%
        10.8
        5_111017_BB0A46ABXX_230-5_ind_10_1
        66.0%
        42%
        101
        20.7
        5_111017_BB0A46ABXX_230-5_ind_10_2
        63.2%
        42%
        101
        20.7
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_1
        0.4%
        65.7%
        42%
        101
        20.3
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_2
        62.9%
        42%
        101
        20.3
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_trimmomatic
        81.6%
        15.2
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_trimmomatic_1
        163.9
        42.7%
        8.0
        64.8%
        42%
        100
        18.7
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_trimmomatic_2
        62.2%
        42%
        100
        18.7
        5_111017_BB0A46ABXX_230-5_ind_10_sortmerna_trimmomatic_STAR
        42.3%
        7.4
        5_111017_BB0A46ABXX_230-9_ind_11_1
        53.4%
        44%
        101
        24.0
        5_111017_BB0A46ABXX_230-9_ind_11_2
        50.8%
        44%
        101
        24.0
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_1
        0.1%
        52.9%
        43%
        101
        23.6
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_2
        50.4%
        43%
        101
        23.6
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_trimmomatic
        86.9%
        19.9
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_trimmomatic_1
        199.1
        42.6%
        9.7
        52.6%
        43%
        100
        22.8
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_trimmomatic_2
        50.1%
        43%
        100
        22.8
        5_111017_BB0A46ABXX_230-9_ind_11_sortmerna_trimmomatic_STAR
        43.5%
        9.7
        5_111017_BB0A46ABXX_250-4_ind_3_1
        57.1%
        45%
        101
        20.3
        5_111017_BB0A46ABXX_250-4_ind_3_2
        54.4%
        45%
        101
        20.3
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_1
        0.1%
        48.2%
        43%
        101
        16.3
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_2
        46.1%
        43%
        101
        16.3
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_trimmomatic
        86.3%
        13.5
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_trimmomatic_1
        180.8
        42.3%
        6.6
        47.7%
        43%
        100
        15.6
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_trimmomatic_2
        45.6%
        43%
        100
        15.6
        5_111017_BB0A46ABXX_250-4_ind_3_sortmerna_trimmomatic_STAR
        43.3%
        6.6
        5_111017_BB0A46ABXX_250-5_ind_8_1
        71.0%
        49%
        101
        22.2
        5_111017_BB0A46ABXX_250-5_ind_8_2
        67.5%
        49%
        101
        22.2
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_1
        0.5%
        43.3%
        44%
        101
        10.3
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_2
        41.1%
        44%
        101
        10.3
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_trimmomatic
        86.0%
        8.1
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_trimmomatic_1
        171.6
        42.4%
        4.0
        42.5%
        44%
        100
        9.4
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_trimmomatic_2
        40.2%
        44%
        100
        9.4
        5_111017_BB0A46ABXX_250-5_ind_8_sortmerna_trimmomatic_STAR
        43.5%
        4.0
        7_110815_AB0B10ABXX_250-8_ind_9_1
        57.9%
        45%
        101
        23.9
        7_110815_AB0B10ABXX_250-8_ind_9_2
        57.5%
        45%
        101
        23.9
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_1
        1.0%
        52.0%
        43%
        101
        20.5
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_2
        51.7%
        43%
        101
        20.5
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_trimmomatic
        87.7%
        16.7
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_trimmomatic_1
        177.8
        42.3%
        8.1
        51.0%
        43%
        100
        19.0
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_trimmomatic_2
        50.7%
        43%
        100
        19.0
        7_110815_AB0B10ABXX_250-8_ind_9_sortmerna_trimmomatic_STAR
        43.5%
        8.2
        P10065_101_S80_L007_1
        78.1%
        44%
        126
        68.3
        P10065_101_S80_L007_2
        77.1%
        44%
        126
        68.3
        P10065_101_S80_L007_sortmerna_1
        1.8%
        77.9%
        43%
        126
        67.4
        P10065_101_S80_L007_sortmerna_2
        76.9%
        44%
        126
        67.4
        P10065_101_S80_L007_sortmerna_trimmomatic
        90.1%
        54.0
        P10065_101_S80_L007_sortmerna_trimmomatic_1
        236.6
        82.2%
        49.3
        76.8%
        43%
        124
        60.0
        P10065_101_S80_L007_sortmerna_trimmomatic_2
        76.4%
        44%
        123
        60.0
        P10065_101_S80_L007_sortmerna_trimmomatic_STAR
        86.1%
        52.6
        P10065_102_S81_L007_1
        78.2%
        44%
        126
        72.9
        P10065_102_S81_L007_2
        77.1%
        44%
        126
        72.9
        P10065_102_S81_L007_sortmerna_1
        1.8%
        78.0%
        43%
        126
        71.8
        P10065_102_S81_L007_sortmerna_2
        76.9%
        44%
        126
        71.8
        P10065_102_S81_L007_sortmerna_trimmomatic
        90.6%
        57.9
        P10065_102_S81_L007_sortmerna_trimmomatic_1
        240.9
        82.8%
        53.0
        76.8%
        43%
        124
        63.9
        P10065_102_S81_L007_sortmerna_trimmomatic_2
        76.4%
        44%
        123
        63.9
        P10065_102_S81_L007_sortmerna_trimmomatic_STAR
        86.2%
        56.4
        P10065_103_S82_L007_1
        78.6%
        43%
        126
        64.3
        P10065_103_S82_L007_2
        77.7%
        44%
        126
        64.3
        P10065_103_S82_L007_sortmerna_1
        1.8%
        78.3%
        43%
        126
        63.4
        P10065_103_S82_L007_sortmerna_2
        77.5%
        44%
        126
        63.4
        P10065_103_S82_L007_sortmerna_trimmomatic
        90.9%
        50.6
        P10065_103_S82_L007_sortmerna_trimmomatic_1
        221.4
        83.4%
        46.4
        77.0%
        43%
        124
        55.7
        P10065_103_S82_L007_sortmerna_trimmomatic_2
        76.7%
        43%
        123
        55.7
        P10065_103_S82_L007_sortmerna_trimmomatic_STAR
        86.0%
        49.2
        P10065_104_S83_L007_1
        77.1%
        43%
        126
        68.6
        P10065_104_S83_L007_2
        76.1%
        44%
        126
        68.6
        P10065_104_S83_L007_sortmerna_1
        1.8%
        76.9%
        43%
        126
        67.5
        P10065_104_S83_L007_sortmerna_2
        75.9%
        44%
        126
        67.5
        P10065_104_S83_L007_sortmerna_trimmomatic
        90.6%
        53.8
        P10065_104_S83_L007_sortmerna_trimmomatic_1
        223.6
        82.4%
        48.9
        75.4%
        43%
        124
        59.4
        P10065_104_S83_L007_sortmerna_trimmomatic_2
        75.1%
        43%
        123
        59.4
        P10065_104_S83_L007_sortmerna_trimmomatic_STAR
        85.6%
        52.2
        P9724_101_S68_L005_1
        69.6%
        43%
        126
        38.9
        P9724_101_S68_L005_2
        68.5%
        43%
        126
        38.9
        P9724_101_S68_L005_sortmerna_1
        1.3%
        69.0%
        43%
        126
        37.9
        P9724_101_S68_L005_sortmerna_2
        67.8%
        43%
        126
        37.9
        P9724_101_S68_L005_sortmerna_trimmomatic
        89.3%
        31.2
        P9724_101_S68_L005_sortmerna_trimmomatic_1
        225.5
        82.0%
        28.7
        67.9%
        43%
        124
        35.0
        P9724_101_S68_L005_sortmerna_trimmomatic_2
        67.5%
        43%
        124
        35.0
        P9724_101_S68_L005_sortmerna_trimmomatic_STAR
        85.5%
        30.2
        P9724_102_S69_L005_1
        71.1%
        43%
        126
        37.8
        P9724_102_S69_L005_2
        70.0%
        44%
        126
        37.8
        P9724_102_S69_L005_sortmerna_1
        1.3%
        70.2%
        43%
        126
        36.4
        P9724_102_S69_L005_sortmerna_2
        69.0%
        43%
        126
        36.4
        P9724_102_S69_L005_sortmerna_trimmomatic
        89.8%
        30.0
        P9724_102_S69_L005_sortmerna_trimmomatic_1
        220.6
        82.5%
        27.6
        69.2%
        43%
        125
        33.4
        P9724_102_S69_L005_sortmerna_trimmomatic_2
        68.5%
        43%
        124
        33.4
        P9724_102_S69_L005_sortmerna_trimmomatic_STAR
        85.5%
        29.0
        P9724_103_S70_L005_1
        69.5%
        43%
        126
        38.3
        P9724_103_S70_L005_2
        67.8%
        44%
        126
        38.3
        P9724_103_S70_L005_sortmerna_1
        1.5%
        68.6%
        43%
        126
        36.9
        P9724_103_S70_L005_sortmerna_2
        66.9%
        43%
        126
        36.9
        P9724_103_S70_L005_sortmerna_trimmomatic
        89.2%
        29.9
        P9724_103_S70_L005_sortmerna_trimmomatic_1
        225.8
        81.7%
        27.4
        67.4%
        43%
        125
        33.6
        P9724_103_S70_L005_sortmerna_trimmomatic_2
        66.3%
        43%
        124
        33.6
        P9724_103_S70_L005_sortmerna_trimmomatic_STAR
        85.5%
        29.0
        P9724_104_S71_L005_1
        70.4%
        43%
        126
        40.2
        P9724_104_S71_L005_2
        68.4%
        44%
        126
        40.2
        P9724_104_S71_L005_sortmerna_1
        1.6%
        69.6%
        43%
        126
        38.9
        P9724_104_S71_L005_sortmerna_2
        67.7%
        44%
        126
        38.9
        P9724_104_S71_L005_sortmerna_trimmomatic
        89.3%
        31.3
        P9724_104_S71_L005_sortmerna_trimmomatic_1
        225.7
        81.8%
        28.6
        68.4%
        43%
        125
        35.0
        P9724_104_S71_L005_sortmerna_trimmomatic_2
        67.2%
        43%
        123
        35.0
        P9724_104_S71_L005_sortmerna_trimmomatic_STAR
        86.0%
        30.3
        P9724_105_S72_L005_1
        68.4%
        43%
        126
        37.5
        P9724_105_S72_L005_2
        67.5%
        43%
        126
        37.5
        P9724_105_S72_L005_sortmerna_1
        1.6%
        67.7%
        43%
        126
        36.4
        P9724_105_S72_L005_sortmerna_2
        66.7%
        43%
        126
        36.4
        P9724_105_S72_L005_sortmerna_trimmomatic
        90.4%
        29.4
        P9724_105_S72_L005_sortmerna_trimmomatic_1
        222.8
        82.8%
        26.9
        66.5%
        43%
        125
        32.5
        P9724_105_S72_L005_sortmerna_trimmomatic_2
        65.9%
        43%
        124
        32.5
        P9724_105_S72_L005_sortmerna_trimmomatic_STAR
        85.7%
        28.4
        P9724_106_S73_L005_1
        69.4%
        43%
        126
        38.4
        P9724_106_S73_L005_2
        68.1%
        44%
        126
        38.4
        P9724_106_S73_L005_sortmerna_1
        1.6%
        68.7%
        43%
        126
        37.2
        P9724_106_S73_L005_sortmerna_2
        67.4%
        43%
        126
        37.2
        P9724_106_S73_L005_sortmerna_trimmomatic
        90.3%
        30.6
        P9724_106_S73_L005_sortmerna_trimmomatic_1
        230.0
        82.4%
        27.9
        67.8%
        43%
        125
        33.9
        P9724_106_S73_L005_sortmerna_trimmomatic_2
        67.0%
        43%
        123
        33.9
        P9724_106_S73_L005_sortmerna_trimmomatic_STAR
        85.8%
        29.7
        P9724_107_S74_L005_1
        70.9%
        43%
        126
        35.9
        P9724_107_S74_L005_2
        69.1%
        44%
        126
        35.9
        P9724_107_S74_L005_sortmerna_1
        1.5%
        69.8%
        43%
        126
        34.3
        P9724_107_S74_L005_sortmerna_2
        67.9%
        43%
        126
        34.3
        P9724_107_S74_L005_sortmerna_trimmomatic
        90.5%
        28.5
        P9724_107_S74_L005_sortmerna_trimmomatic_1
        236.6
        82.3%
        25.9
        68.8%
        43%
        125
        31.5
        P9724_107_S74_L005_sortmerna_trimmomatic_2
        67.4%
        43%
        124
        31.5
        P9724_107_S74_L005_sortmerna_trimmomatic_STAR
        86.0%
        27.6

        HTSeq Count

        HTSeq Count is part of the HTSeq Python package - it takes a file with aligned sequencing reads, plus a list of genomic features and counts how many reads map to each feature.

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        Kallisto

        Kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.

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        STAR

        STAR is an ultrafast universal RNA-seq aligner.

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        Trimmomatic

        Trimmomatic is a flexible read trimming tool for Illumina NGS data.

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        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Quality Histograms

        The mean quality value across each base position in the read. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.

        Click a heatmap row to see a line plot for that dataset.

        rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Per Base N Content

        The percentage of base calls at each position for which an N was called. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Sequence Duplication Levels

        The relative level of duplication found for every sequence. See the FastQC help.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Overrepresented sequences

        The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

        Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).


        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.

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